Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Liver

Cell type

Hep G2

Primary Tissue

Liver

Tissue Diagnosis

Carcinoma Hepatocellular

Sample

source_name

pooled input sample

cell line

HepG2

chip antibody

none (input)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. After recovery of ChIP and input DNA, whole-genome amplification was performed using the WGA4 kit (Sigma-Aldrich) and BpmI-WGA primers. Amplified DNA was digested with BpmI (New England Biolab). After that, 30 ng of the amplified DNA was used with the NEBNext ChIP-seq library prep reagent set (New England Biolab).

Sequencing Platform

instrument_model

Illumina HiSeq 4000

hg38

Number of total reads

16535960

Reads aligned (%)

79.8

Duplicates removed (%)

11.7

Number of peaks

551 (qval < 1E-05)

hg19

Number of total reads

16535960

Reads aligned (%)

79.0

Duplicates removed (%)

12.0

Number of peaks

308 (qval < 1E-05)